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Wang Z, Sheveleva AM, Li J, Zhou Z, Sapchenko S, Whitehead G, Warren MR, Collison D, Sun J, Schröder M, McInnes EJL, Yang S, Tuna F. Analysis of a Cu-Doped Metal-Organic Framework, MFM-520(Zn 1-x Cu x ), for NO 2 Adsorption. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2305542. [PMID: 37964415 PMCID: PMC10767414 DOI: 10.1002/advs.202305542] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2023] [Revised: 10/01/2023] [Indexed: 11/16/2023]
Abstract
MFM-520(Zn) confines dimers of NO2 with a high adsorption of 4.52 mmol g-1 at 1 bar at 298 K. The synthesis and the incommensurate structure of Cu-doped MFM-520(Zn) are reported. The introduction of paramagnetic Cu2+ sites allows investigation of the electronic and geometric structure of metal site by in situ electron paramagnetic resonance (EPR) spectroscopy upon adsorption of NO2 . By combining continuous wave and electron-nuclear double resonance spectroscopy, an unusual reverse Berry distorted coordination geometry of the Cu2+ centers is observed. Interestingly, Cu-doped MFM-520(Zn0.95 Cu0.05 ) shows enhanced adsorption of NO2 of 5.02 mmol g-1 at 1 bar at 298 K. Whereas MFM-520(Zn) confines adsorbed NO2 as N2 O4 , the presence of monomeric NO2 at low temperature suggests that doping with Cu2+ centers into the framework plays an important role in tuning the dimerization of NO2 molecules in the pore via the formation of specific host-guest interactions.
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Affiliation(s)
- Zi Wang
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
- Photon Science InstituteUniversity of ManchesterManchesterM13 9PLUK
| | - Alena M. Sheveleva
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
- Photon Science InstituteUniversity of ManchesterManchesterM13 9PLUK
| | - Jiangnan Li
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
| | - Zhengyang Zhou
- State Key Laboratory of High Performance Ceramics and Superfine Microstructure, Shanghai Institute of CeramicsChinese Academy of SciencesShanghai200050China
| | - Sergei Sapchenko
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
| | - George Whitehead
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
| | - Mark R. Warren
- Diamond Light SourceHarwell Science CampusOxfordshireOX11 0DEUK
| | - David Collison
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
- Photon Science InstituteUniversity of ManchesterManchesterM13 9PLUK
| | - Junliang Sun
- College of Chemistry and Molecular Engineering, Beijing National Laboratory for Molecular SciencesPeking UniversityBeijing100871China
| | - Martin Schröder
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
| | - Eric J. L. McInnes
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
- Photon Science InstituteUniversity of ManchesterManchesterM13 9PLUK
| | - Sihai Yang
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
- College of Chemistry and Molecular Engineering, Beijing National Laboratory for Molecular SciencesPeking UniversityBeijing100871China
| | - Floriana Tuna
- Department of ChemistryUniversity of ManchesterManchesterM13 9PLUK
- Photon Science InstituteUniversity of ManchesterManchesterM13 9PLUK
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Abstract
Electron-nuclear double resonance (ENDOR) measures the hyperfine interaction of magnetic nuclei with paramagnetic centers and is hence a powerful tool for spectroscopic investigations extending from biophysics to material science. Progress in microwave technology and the recent availability of commercial electron paramagnetic resonance (EPR) spectrometers up to an electron Larmor frequency of 263 GHz now open the opportunity for a more quantitative spectral analysis. Using representative spectra of a prototype amino acid radical in a biologically relevant enzyme, the [Formula: see text] in Escherichia coli ribonucleotide reductase, we developed a statistical model for ENDOR data and conducted statistical inference on the spectra including uncertainty estimation and hypothesis testing. Our approach in conjunction with 1H/2H isotopic labeling of [Formula: see text] in the protein unambiguously established new unexpected spectral contributions. Density functional theory (DFT) calculations and ENDOR spectral simulations indicated that these features result from the beta-methylene hyperfine coupling and are caused by a distribution of molecular conformations, likely important for the biological function of this essential radical. The results demonstrate that model-based statistical analysis in combination with state-of-the-art spectroscopy accesses information hitherto beyond standard approaches.
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McCracken J, Cappillino PJ, McNally JS, Krzyaniak MD, Howart M, Tarves PC, Caradonna JP. Characterization of Water Coordination to Ferrous Nitrosyl Complexes with fac-N2O, cis-N2O2, and N2O3 Donor Ligands. Inorg Chem 2015; 54:6486-97. [DOI: 10.1021/acs.inorgchem.5b00788] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- John McCracken
- Department of Chemistry, Michigan State University, East
Lansing, Michigan 48824, United States
| | - Patrick J. Cappillino
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States
- Department of Chemistry and Biochemistry, University of Massachusetts at Dartmouth, North Dartmouth, Massachusetts 02347, United States
| | - Joshua S. McNally
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States
| | - Matthew D. Krzyaniak
- Department of Chemistry, Michigan State University, East
Lansing, Michigan 48824, United States
| | - Michael Howart
- Department of Chemistry, Michigan State University, East
Lansing, Michigan 48824, United States
| | - Paul C. Tarves
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States
| | - John P. Caradonna
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States
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Di Valentin M, Tait CE, Salvadori E, Orian L, Polimeno A, Carbonera D. Evidence for water-mediated triplet–triplet energy transfer in the photoprotective site of the peridinin–chlorophyll a–protein. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2014; 1837:85-97. [DOI: 10.1016/j.bbabio.2013.07.005] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2013] [Revised: 07/05/2013] [Accepted: 07/10/2013] [Indexed: 11/15/2022]
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5
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Sun L, Hernandez-Guzman J, Warncke K. OPTESIM, a versatile toolbox for numerical simulation of electron spin echo envelope modulation (ESEEM) that features hybrid optimization and statistical assessment of parameters. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2009; 200:21-28. [PMID: 19553148 PMCID: PMC3058049 DOI: 10.1016/j.jmr.2009.05.012] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2008] [Revised: 04/25/2009] [Accepted: 05/27/2009] [Indexed: 05/28/2023]
Abstract
Electron spin echo envelope modulation (ESEEM) is a technique of pulsed-electron paramagnetic resonance (EPR) spectroscopy. The analyis of ESEEM data to extract information about the nuclear and electronic structure of a disordered (powder) paramagnetic system requires accurate and efficient numerical simulations. A single coupled nucleus of known nuclear g value (g(N)) and spin I=1 can have up to eight adjustable parameters in the nuclear part of the spin Hamiltonian. We have developed OPTESIM, an ESEEM simulation toolbox, for automated numerical simulation of powder two- and three-pulse one-dimensional ESEEM for arbitrary number (N) and type (I, g(N)) of coupled nuclei, and arbitrary mutual orientations of the hyperfine tensor principal axis systems for N>1. OPTESIM is based in the Matlab environment, and includes the following features: (1) a fast algorithm for translation of the spin Hamiltonian into simulated ESEEM, (2) different optimization methods that can be hybridized to achieve an efficient coarse-to-fine grained search of the parameter space and convergence to a global minimum, (3) statistical analysis of the simulation parameters, which allows the identification of simultaneous confidence regions at specific confidence levels. OPTESIM also includes a geometry-preserving spherical averaging algorithm as default for N>1, and global optimization over multiple experimental conditions, such as the dephasing time (tau) for three-pulse ESEEM, and external magnetic field values. Application examples for simulation of (14)N coupling (N=1, N=2) in biological and chemical model paramagnets are included. Automated, optimized simulations by using OPTESIM lead to a convergence on dramatically shorter time scales, relative to manual simulations.
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Affiliation(s)
| | | | - Kurt Warncke
- Corresponding Author: Kurt Warncke Department of Physics N201 Mathematics and Science Center 400 Dowman Drive Emory University Atlanta, Georgia 30322-2430 Phone: 404-727-2975 Fax: 404-727-0873
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6
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McCracken J, Vassiliev IR, Yang EC, Range K, Barry BA. ESEEM studies of peptide nitrogen hyperfine coupling in tyrosyl radicals and model peptides. J Phys Chem B 2007; 111:6586-92. [PMID: 17518496 PMCID: PMC2518650 DOI: 10.1021/jp071402x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Tyrosyl radicals are important in long-range electron transfer in several enzymes, but the protein environmental factors that control midpoint potential and electron transfer rate are not well understood. To develop a more detailed understanding of the effect of protein sequence, we have performed 14N and 15N electron spin echo envelope modulation (ESEEM) measurements on tyrosyl radical, generated either in polycrystalline tyrosinate or in its 15N-labeled isotopomer, by UV photolysis. 14N-ESEEM was also performed on tyrosyl radical generated in tyrosine-containing pentapeptide samples. Simulation of the 14N- and 15N-tyrosyl radical ESEEM measurements yielded no significant isotropic hyperfine splitting to the amine or amide nitrogen; the amplitude of the anisotropic, nitrogen hyperfine coupling (0.21 MHz) was consistent with a dipole-dipole distance of 3.0 A. Density functional theory was used to calculate the isotropic and anisotropic hyperfine couplings to the amino nitrogen in four different tyrosyl radical conformers. Comparison with the simulated data suggested that the lowest energy radical conformer, generated in tyrosine at pH 11, has a 76 degrees Calpha-Cbeta-C1'-C2' ring and a -73 degrees C-Calpha-Cbeta-C1' backbone dihedral angle. In addition, the magnitude, orientation, and asymmetry of the nuclear quadrupole coupling tensor were derived from analysis of the tyrosyl radical 14N-ESEEM. The simulations showed differences in the coupling and orientation of the nuclear quadrupole tensor, when the tyrosinate and pentapeptide samples were compared. These results suggest sequence- or conformation-induced changes in the ionic character of the NH bond in different tyrosine-containing peptides.
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Affiliation(s)
- John McCracken
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA.
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Warncke K. Characterization of the product radical structure in the Co(II)-product radical pair state of coenzyme B12-dependent ethanolamine deaminase by using three-pulse 2H ESEEM spectroscopy. Biochemistry 2005; 44:3184-93. [PMID: 15736929 DOI: 10.1021/bi048196t] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Molecular structural features of the product radical in the Co(II)-product radical pair catalytic intermediate state in coenzyme B(12)- (adenosylcobalamin-) dependent ethanolamine deaminase from Salmonella typhimurium have been characterized by using X-band three-pulse electron spin-echo envelope modulation (ESEEM) spectroscopy in the disordered solid state. The Co(II)-product radical pair state was prepared by cryotrapping holoenzyme during steady-state turnover on excess 1,1,2,2-(2)H(4)-aminoethanol or natural abundance, (1)H(4)-aminoethanol. Simulation of the (2)H/(1)H quotient ESEEM (obtained at two microwave frequencies, 8.9 and 10.9 GHz) from the interaction of the unpaired electron localized at C2 of the product radical with nearby (2)H nuclei requires four types of coupled (2)H, which are assigned as follows: (a) a single strongly coupled (effective dipole distance, r(eff) = 2.3 A) (2)H in the C5' methyl group of 5'-deoxyadenosine, (b) two weakly coupled (r(eff) = 4.2 A) (2)H in the C5' methyl group, (c) one (2)H coupling from a beta-(2)H bonded to C1 of the product radical (isotropic hyperfine coupling, A(iso) = 4.7 MHz), and (d) a second type of C1 beta-(2)H coupling (A(iso) = 7.7 MHz). The two beta-(2)H couplings are proposed to arise from two C1-C2 rotamer states of the product radical that are present in approximately equal proportion. A model is presented, in which C5' is positioned at a distance of 3.3 A from C2, which is comparable with the C1-C5' distance in the Co(II)-substrate radical pair intermediate. Therefore, the C5'methyl group remains in close (van der Waals) contact with the substrate and product radical species during the radical rearrangement step of the catalytic cycle, and the C5' center is the sole mediator of radical pair recombination in ethanolamine deaminase.
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Affiliation(s)
- Kurt Warncke
- Department of Physics, N201 Mathematics and Science Center, 400 Dowman Drive, Emory University, Atlanta, Georgia 30322, USA.
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Warncke K, Utada AS. Interaction of the substrate radical and the 5'-deoxyadenosine-5'-methyl group in vitamin B(12) coenzyme-dependent ethanolamine deaminase. J Am Chem Soc 2001; 123:8564-72. [PMID: 11525664 DOI: 10.1021/ja003658l] [Citation(s) in RCA: 43] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The distance and relative orientation of the C5' methyl group of 5'-deoxyadenosine and the substrate radical in vitamin B(12) coenzyme-dependent ethanolamine deaminase from Salmonella typhimurium have been characterized by using X-band two-pulse electron spin-echo envelope modulation (ESEEM) spectroscopy in the disordered solid state. The (S)-2-aminopropanol-generated substrate radical catalytic intermediate was prepared by cryotrapping steady-state mixtures of enzyme in which catalytically exchangeable hydrogen sites in the active site had been labeled by previous turnover on (2)H(4)-ethanolamine. Simulation of the time- and frequency-domain ESEEM requires two types of coupled (2)H. The strongly coupled (2)H has an effective dipole distance (r(eff)) of 2.2 A, and isotropic coupling constant (A(iso)) of -0.35 MHz. The weakly coupled (2)H has r(eff) = 3.8 A and A(iso) = 0 MHz. The best (2)H ESEEM time- and frequency-domain simulations are achieved with a model in which the hyperfine couplings arise from one strongly coupled hydrogen site and two equivalent weakly coupled hydrogen sites located on the C5' methyl group of 5'-deoxyadenosine. This model indicates that the unpaired electron on C1 of the substrate radical and C5' are separated by 3.2 A and are thus at closest contact. The close proximity of C1 and C5' indicates that C5' of the 5'-deoxyadenosyl moiety directly mediates radical migration between cobalt in cobalamin and the substrate/product site over a distance of 5-7 A in the active site of ethanolamine deaminase.
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Affiliation(s)
- K Warncke
- Department of Physics, Emory University, 1001 Rollins Research Center, 1510 Clifton Road, Atlanta, GA 30322, USA.
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9
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Abstract
Pulsed electron paramagnetic resonance (EPR) methods such as ESEEM, PELDOR, relaxation time measurements, transient EPR, high-field/high-frequency EPR, and pulsed ENDOR, have been used successfully to investigate the local structure and dynamics of paramagnetic centers in biological samples. These methods allow different contributions to the EPR spectra to be distinguished and can help unravel complicated EPR spectra consisting of overlapping resonance lines, as are often found in disordered protein samples. The basic principles, specific potentials, technical requirements, and limitations of these advanced EPR techniques will be reviewed together with recent applications to metal centers, organic radicals, and spin labels in proteins.
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Affiliation(s)
- T Prisner
- Institute for Physical and Theoretical Chemistry, J. W. Goethe-University Frankfurt, Marie-Curie-Strasse 11, Frankfurt am Main, D-60439 Germany.
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10
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Warncke K, Perry MS. Redox state dependence of rotamer distributions in tyrosine and neutral tyrosyl radical. BIOCHIMICA ET BIOPHYSICA ACTA 2001; 1545:1-5. [PMID: 11342025 DOI: 10.1016/s0167-4838(00)00289-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
Redox state-dependent changes in the relative orientation of the phenol side chain and the peptide group in model tyrosine have been characterized using specific 2H isotopic labelling and X-band electron paramagnetic resonance (EPR) spectroscopy. Tyrosyl radicals were generated by UV photolysis of tyrosine trapped in rigid polycrystalline basic-aqueous medium at T < or = 170 K. Ring-2H(4) and beta-2H(2) substitutions on tyrosine were used to enhance the lineshape contributions from beta-hydrogen or ring-hydrogen hyperfine interactions, respectively. The EPR lineshape at 120 K of the trapped ring-2H(4)-tyrosyl radical is altered dramatically after annealing at 235 K. In contrast, the lineshape of the beta-2H(2)-tyrosyl radical is impervious to annealing. The effect of annealing on the lineshape therefore arises from a change in the isotropic hyperfine coupling between unpaired pi-electron spin density at the ring carbon atom C(1) and the beta-hydrogen nuclei, which is caused by rotational relaxation of the ring and peptide group about the C(1)-C(beta) bond. EPR simulations indicate angular distributions of the peptide group (R-) of 0 degrees < or = theta(R) < or = 30 degrees and 0 degrees < or = theta(R)< or = 18 degrees in the rigid and relaxed radical states, respectively. Redox-induced changes in the C(1)-C(beta) rotamer distribution must be accounted for in assessments of stable amino acid side chain equilibrium structures, and may influence catalytic tyrosyl radical/tyrosine function in enzymes.
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Affiliation(s)
- K Warncke
- Department of Physics, 1001 Rollins Research Center, Emory University, 1510 Clifton Road, Atlanta, GA 30322, USA.
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12
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Deligiannakis Y, Louloudi M, Hadjiliadis N. Electron spin echo envelope modulation (ESEEM) spectroscopy as a tool to investigate the coordination environment of metal centers. Coord Chem Rev 2000. [DOI: 10.1016/s0010-8545(99)00218-0] [Citation(s) in RCA: 144] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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13
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Shi W, Hoganson CW, Espe M, Bender CJ, Babcock GT, Palmer G, Kulmacz RJ, Tsai AL. Electron paramagnetic resonance and electron nuclear double resonance spectroscopic identification and characterization of the tyrosyl radicals in prostaglandin H synthase 1. Biochemistry 2000; 39:4112-21. [PMID: 10747802 DOI: 10.1021/bi992561c] [Citation(s) in RCA: 41] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The tyrosyl radicals generated in reactions of ethyl hydrogen peroxide with both native and indomethacin-pretreated prostaglandin H synthase 1 (PGHS-1) were examined by low-temperature electron paramagnetic resonance (EPR) and electron nuclear double resonance (ENDOR) spectroscopies. In the reaction of peroxide with the native enzyme at 0 degrees C, the tyrosyl radical EPR signal underwent a continuous reduction in line width and lost intensity as the incubation time increased, changing from an initial, 35-G wide doublet to a wide singlet of slightly smaller line width and finally to a 25-G narrow singlet. The 25-G narrow singlet produced by self-inactivation was distinctly broader than the 22-G narrow singlet obtained by indomethacin treatment. Analysis of the narrow singlet EPR spectra of self-inactivated and indomethacin-pretreated enzymes suggests that they reflect conformationally distinct tyrosyl radicals. ENDOR spectroscopy allowed more detailed characterization by providing hyperfine couplings for ring and methylene protons. These results establish that the wide doublet and the 22-G narrow singlet EPR signals arise from tyrosyl radicals with different side-chain conformations. The wide-singlet ENDOR spectrum, however, is best accounted for as a mixture of native wide-doublet and self-inactivated 25-G narrow-singlet species, consistent with an earlier EPR study [DeGray et al. (1992) J. Biol. Chem. 267, 23583-23588]. We conclude that a tyrosyl residue other than the catalytically essential Y385 species is most likely responsible for the indomethacin-inhibited, narrow-singlet spectrum. Thus, this inhibitor may function by redirecting radical formation to a catalytically inactive side chain. Either radical migration or conformational relaxation at Y385 produces the 25-G narrow singlet during self-inactivation. Our ENDOR data also indicate that the catalytically active, wide-doublet species is not hydrogen bonded, which may enhance its reactivity toward the fatty-acid substrate bound nearby.
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Affiliation(s)
- W Shi
- Department of Internal Medicine, University of Texas Health Science Center at Houston, Houston, Texas 77225, USA
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14
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Mezzetti A, Maniero AL, Brustolon M, Giacometti G, Brunel LC. A Tyrosyl Radical in an Irradiated Single Crystal of N-Acetyl-l-tyrosine Studied by X-band cw-EPR, High-Frequency EPR, and ENDOR Spectroscopies. J Phys Chem A 1999. [DOI: 10.1021/jp9903763] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Alberto Mezzetti
- Dipartimento di Chimica Fisica “A. Miolati”, Università di Padova, Italy
| | - Anna Lisa Maniero
- Dipartimento di Chimica Fisica “A. Miolati”, Università di Padova, Italy
| | - Marina Brustolon
- Dipartimento di Chimica Fisica “A. Miolati”, Università di Padova, Italy
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15
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Ke SC, Torrent M, Museav DG, Morokuma K, Warncke K. Identification of dimethylbenzimidazole axial coordination and characterization of (14)N superhyperfine and nuclear quadrupole coupling in Cob(II)alamin bound to ethanolamine deaminase in a catalytically-engaged substrate radical-Cobalt(II) biradical state. Biochemistry 1999; 38:12681-9. [PMID: 10504238 DOI: 10.1021/bi983067w] [Citation(s) in RCA: 49] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Cobalt(II)-(14)N superhyperfine and (14)N nuclear quadrupole couplings in cryotrapped free and ethanolamine deaminase-bound cob(II)alamin have been characterized in the disordered solid state by using X-band electron spin-echo envelope modulation (ESEEM) spectroscopy. Enzyme-bound cob(II)alamin was cryotrapped after formation by substrate-initiated, thermally activated cleavage of the cobalt-carbon bond of adenosylcobalamin. Free dimethylbenzimidazole axial base-on cob(II)alamin was formed by photolysis of the corresponding adenosylcobalamin and cryotrapped in glycerol-aqueous glass. Three-pulse ESEEM experiments were performed by using microwave pulse excitation at the g( perpendicular) value of Co(II) at magnetic field values of 287.0 and 345.0 mT and over a range of tau values from 227 to 1316 ns. Two common sets of (14)N features are distinguished in the ESEEM spectra. One set is assigned to the remote (N1) nitrogen in the dimethylbenzimidazole alpha-axial ligand by using two independent approaches: (a) comparison of ESEEM from cob(II)alamin with ESEEM from cob(II)inamide-ligand model compounds and (b) from the correspondence between the N1 (14)N nuclear quadrupole parameters derived from ESEEM simulations and those computed by using density functional theory. The second set is assigned to the corrin ring (14)N nuclei. The results identify the coenzyme's on-board dimethylbenzimidazole moiety as the alpha-axial ligand to cob(II)alamin in ethanolamine deaminase in the substrate radical-Co(II) biradical catalytic intermediate state. Thus, Co(II) is a pentacoordinate, alpha-axial liganded complex during turnover. We infer that dimethylbenzimidazole is also the alpha-axial ligand to the intact coenzyme in the resting enzyme. A 14% increase in the isotropic hyperfine coupling of the remote dimethylbenzimidazole (14)N nucleus in enzyme-bound versus free base-on cob(II)alamin shows an enhanced delocalization of unpaired spin density from Co(II) onto the axial ligand, which would contribute to the acceleration of the cobalt-carbon bond cleavage rate in situ.
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Affiliation(s)
- S C Ke
- Department of Physics, 1001 Rollins Research Center, 1510 Clifton Road, Emory University, Atlanta, Georgia 30322, USA
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16
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Raitsimring AM, Pacheco A, Enemark JH. ESEEM Investigations of the High pH and Low pH Forms of Chicken Liver Sulfite Oxidase. J Am Chem Soc 1998. [DOI: 10.1021/ja981903j] [Citation(s) in RCA: 46] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Arnold M. Raitsimring
- Contribution from the Department of Chemistry, University of Arizona, Tucson, Arizona 85721
| | - Andrew Pacheco
- Contribution from the Department of Chemistry, University of Arizona, Tucson, Arizona 85721
| | - John H. Enemark
- Contribution from the Department of Chemistry, University of Arizona, Tucson, Arizona 85721
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17
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Raitsimring AM, Walker FA. Porphyrin and Ligand Protons as Internal Labels for Determination of Ligand Orientation in ESEEMS of Low-Spin d5 Complexes in Glassy Media: ESEEM Studies of the Orientation of the g Tensor with Respect to the Planes of Axial Ligands and Porphyrin Nitrogens of Low-Spin Ferriheme Systems. J Am Chem Soc 1998. [DOI: 10.1021/ja9722640] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Arnold M. Raitsimring
- Contribution from the Department of Chemistry, University of Arizona, Tucson, Arizona 85721
| | - F. Ann Walker
- Contribution from the Department of Chemistry, University of Arizona, Tucson, Arizona 85721
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18
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Nieuwenhuis SAM, Hulsebosch RJ, Raap J, Gast P, Lugtenburg J, Hoff AJ. Structure of the YD Tyrosine Radical in Photosystem II. Determination of the Orientation of the Phenoxyl Ring by Enantioselective Deuteration of the Methylene Group. J Am Chem Soc 1998. [DOI: 10.1021/ja971874x] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- S. A. M. Nieuwenhuis
- Leiden Institute of Chemistry, Gorlaeus Laboratories Department of Biophysics, Huygens Laboratory Leiden University, P.O. Box 9504 2300 RA Leiden, The Netherlands
| | - R. J. Hulsebosch
- Leiden Institute of Chemistry, Gorlaeus Laboratories Department of Biophysics, Huygens Laboratory Leiden University, P.O. Box 9504 2300 RA Leiden, The Netherlands
| | - J. Raap
- Leiden Institute of Chemistry, Gorlaeus Laboratories Department of Biophysics, Huygens Laboratory Leiden University, P.O. Box 9504 2300 RA Leiden, The Netherlands
| | - P. Gast
- Leiden Institute of Chemistry, Gorlaeus Laboratories Department of Biophysics, Huygens Laboratory Leiden University, P.O. Box 9504 2300 RA Leiden, The Netherlands
| | - J. Lugtenburg
- Leiden Institute of Chemistry, Gorlaeus Laboratories Department of Biophysics, Huygens Laboratory Leiden University, P.O. Box 9504 2300 RA Leiden, The Netherlands
| | - A. J. Hoff
- Leiden Institute of Chemistry, Gorlaeus Laboratories Department of Biophysics, Huygens Laboratory Leiden University, P.O. Box 9504 2300 RA Leiden, The Netherlands
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19
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Diner BA. [23]Application of spectroscopic techniques to the Study of Photosystem II Mutations Engineered in Synechocystis and Chlamydomonas. Methods Enzymol 1998. [DOI: 10.1016/s0076-6879(98)97025-2] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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Kinetic isotope effects on the reduction of the Yz radical in oxygen evolving and tris-washed photosystem II membranes by time-resolved EPR. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 1997. [DOI: 10.1016/s0005-2728(97)00072-8] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Hulsebosch RJ, van den Brink JS, Nieuwenhuis SAM, Gast P, Raap J, Lugtenburg J, Hoff AJ. Electronic Structure of the Neutral Tyrosine Radical in Frozen Solution. Selective 2H-, 13C-, and 17O-Isotope Labeling and EPR Spectroscopy at 9 and 35 GHz. J Am Chem Soc 1997. [DOI: 10.1021/ja9707872] [Citation(s) in RCA: 57] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- R. J. Hulsebosch
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
| | - J. S. van den Brink
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
| | - S. A. M. Nieuwenhuis
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
| | - P. Gast
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
| | - J. Raap
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
| | - J. Lugtenburg
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
| | - A. J. Hoff
- Contribution from the Department of Biophysics, Huygens Laboratory, Leiden University, P.O. Box 9504, 2300 RA Leiden, The Netherlands, and Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands
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Farrar CT, Gerfen GJ, Griffin RG, Force DA, Britt RD. Electronic Structure of the YD Tyrosyl Radical in Photosystem II: A High-Frequency Electron Paramagnetic Resonance Spectroscopic and Density Functional Theoretical Study. J Phys Chem B 1997. [DOI: 10.1021/jp9709518] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Warncke K, Babcock GT, McCracken J. Static Conformational Distributions in the Solid State: Analysis and Application to Angular Dispersion in Side Chain Orientations in Model Tyrosine in Aqueous Glass. ACTA ACUST UNITED AC 1996. [DOI: 10.1021/jp952515w] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kurt Warncke
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824
| | - Gerald T. Babcock
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824
| | - John McCracken
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824
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Hoganson CW, Sahlin M, Sjöberg BM, Babcock GT. Electron Magnetic Resonance of the Tyrosyl Radical in Ribonucleotide Reductase fromEscherichia coli. J Am Chem Soc 1996. [DOI: 10.1021/ja953979a] [Citation(s) in RCA: 98] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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